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A robust and automated protocol for the derivation of sound force field parameters, suitable for condensed-phase classical simulations, is here tested and validated on several halogenated hydrocarbons, a class of compounds for which standard force fields have often been reported to deliver rather inaccurate performances. The major strength of the proposed protocol is that all of the parameters are derived only from first principles because all of the information required is retrieved from quantum mechanical data, purposely computed for the investigated molecule. This a priori parametrization is carried out separately for the intra- and intermolecular contributions to the force fields, respectively exploiting the Joyce and Picky programs, previously developed in our group. To avoid high computational costs, all quantum mechanical calculations were performed exploiting the density functional theory. Because the choice of the functional is known to be crucial for the description of the intermolecular interactions, a specific procedure is proposed, which allows for a reliable benchmark of different functionals against higher-level data. The intramolecular and intermolecular contribution are eventually joined together, and the resulting quantum mechanically derived force field is thereafter employed in lengthy molecular dynamics simulations to compute several thermodynamic properties that characterize the resulting bulk phase. The accuracy of the proposed parametrization protocol is finally validated by comparing the computed macroscopic observables with the available experimental counterparts. It is found that, on average, the proposed approach is capable of yielding a consistent description of the investigated set, often outperforming the literature standard force fields, or at least delivering results of similar accuracy.
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http://dx.doi.org/10.1021/acs.jctc.6b00705 | DOI Listing |
J Chem Theory Comput
December 2024
Changping Laboratory, No. 28 Life Science Park Rd., Beijing 102206, China.
Accurate modeling of host-guest systems is challenging in modern computational chemistry. It requires intermolecular interaction patterns to be correctly described and, more importantly, the dynamic behaviors of macrocyclic hosts to be accurately modeled. Pillar[]arenes as a crucial family of macrocycles play a critical role in host-guest chemistry and biomedical applications.
View Article and Find Full Text PDFHeliyon
December 2024
Department of Manufacturing Processes and Production Engineering, Rzeszow University of Technology, al. Powst. Warszawy 8, 35-959, Rzeszów, Poland.
The use of a composite welded joint consisting of titanium and austenitic stainless steel metals is evidently a favourable selection for industrial applications employing the resistance spot welding (RSW) operation. Nevertheless, achieving a high-quality welded joint proved challenging owing to the properties of the diverse range of materials' used. To improve the quality of dissimilar welded joints, the welding parameters should be selected precisely.
View Article and Find Full Text PDFInt J Stroke
December 2024
Division of Neurology, McMaster University, Hamilton, ON, Canada.
Background: Secondary stroke prevention in patients with atrial fibrillation (AF) is one of the fastest growing areas in the field of cerebrovascular diseases. This Scientific statement from the World Stroke Organization Brain & Heart Task Force provides a critical analysis of the strength of current evidence this topic, highlights areas of current controversy, identifies knowledge gaps, and proposes priorities for future research.
Methods: We select topics with the highest clinical relevance and perform a systematic search to answer specific practical questions.
Comput Biol Med
December 2024
Department of Mathematics, Capital University of Science and Technology, Islamabad, 44000, Pakistan.
The dynamic behavior of articular cartilage (a soft porous biological tissue) with strain-dependent nonlinear permeability under cyclic compressive loading and magnetic field is investigated computationally. The compressive force is applied on top surface of the cylindrical plug of the tissue by means of a porous filter. The study of mechanical and deformational behavior of soft porous tissues such as articular cartilage under dynamic compressive loading and magnetic field is useful in understanding the underlying mechano-biological process that may lead to the development of a treatment and recovery protocol in a diseased state.
View Article and Find Full Text PDFJ Phys Chem Lett
December 2024
Toyota Central R&D Laboratories, Inc., Nagakute 480-1192, Aichi, Japan.
The modification of Pt surfaces with organic compounds like melamine enhances oxygen reduction reaction activity and catalyst durability. Through first-principles free energy calculations utilizing thermodynamic integration and finite-temperature molecular dynamics, enhanced by machine learning force fields for efficient sampling of nanosecond-scale interfacial water fluctuations and incorporating corrections to accurately reproduce first-principles free energies, we demonstrate that melamine destabilizes OH adsorbates, facilitating their removal and enhancing catalytic activity. Unlike alloys, where OH destabilization is driven by changes in electronic structure and surface strain, melamine disrupts hydrogen bonding between OH and interfacial water.
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